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Hoffmann, R. A wiki for the life sciences where authorship matters. Nature Genetics (2008)

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Knight, J.C. et al.

Knight, Keating, Rockett, Kwiatkowski,

In vivo characterization of regulatory polymorphisms by allele-specific quantification of RNA polymerase loading.

In vivo characterization of regulatory polymorphisms is a key requirement for next-generation human genetic analysis. Here we describe haploChIP, a method that uses chromatin immunoprecipitation (ChIP) and mass spectrometry to identify differential protein-DNA binding in vivo associated with allelic variants of a gene. We demonstrate this approach with the imprinted gene SNRPN. HaploChIP showed close correlation between the level of bound phosphorylated RNA polymerase II at the SNRPN locus and allele-specific expression. Application of the approach to the TNF/LTA locus identified functionally important haplotypes that correlate with allele-specific transcription of LTA. The haploChIP method may be useful in high-throughput screening for common DNA polymorphisms that affect gene regulation in vivo.[1]

References

In vivo characterization of regulatory polymorphisms by allele-specific quantification of RNA polymerase loading. Knight, J.C., Keating, B.J., Rockett, K.A., Kwiatkowski, D.P. Nat. Genet. (2003) [Pubmed]

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